Analysis of interatomic Contacts of Structural Units in PDB entry:
3CDX

Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
This page provides analyses of contacts formed by:

chains
helices
sheets
residues

For analysis of ligand-protein contacts, use:

LPC software

3D structure can be seen in additional window with STING software for 3CDX entry

There are 6 chains in PDB entry 3CDX (CSU analysis of residue contacts immediately below table)

Chain ID	Initial residue	Terminal residue
A	SER 8	ASP 341
B	SER 8	ASP 341
C	SER 8	TYR 339
D	SER 8	TYR 339
E	SER 8	TYR 339
F	SER 8	TRP 343

There are 60 helices in PDB entry 3CDX. Click on helix of interest for CSU analysis.

Helix number	Helix ID	Chain ID	Initial residue	Terminal residue	Helix class
Helix 1	1	A	66	79	Right-handed alpha
Helix 2	2	A	80	84	Right-handed 310
Helix 3	3	A	95	102	Right-handed alpha
Helix 4	4	A	112	116	Right-handed 310
Helix 5	5	A	124	136	Right-handed alpha
Helix 6	6	A	137	141	Right-handed 310
Helix 7	7	A	167	182	Right-handed alpha
Helix 8	8	A	197	205	Right-handed alpha
Helix 9	9	A	221	239	Right-handed alpha
Helix 10	10	A	264	266	Right-handed 310
Helix 11	11	B	66	79	Right-handed alpha
Helix 12	12	B	80	84	Right-handed 310
Helix 13	13	B	95	102	Right-handed alpha
Helix 14	14	B	112	116	Right-handed 310
Helix 15	15	B	124	136	Right-handed alpha
Helix 16	16	B	137	141	Right-handed 310
Helix 17	17	B	167	182	Right-handed alpha
Helix 18	18	B	197	205	Right-handed alpha
Helix 19	19	B	221	239	Right-handed alpha
Helix 20	20	B	264	266	Right-handed 310
Helix 21	21	C	66	79	Right-handed alpha
Helix 22	22	C	80	84	Right-handed 310
Helix 23	23	C	95	102	Right-handed alpha
Helix 24	24	C	112	116	Right-handed 310
Helix 25	25	C	124	136	Right-handed alpha
Helix 26	26	C	137	141	Right-handed 310
Helix 27	27	C	167	182	Right-handed alpha
Helix 28	28	C	197	205	Right-handed alpha
Helix 29	29	C	221	239	Right-handed alpha
Helix 30	30	C	264	266	Right-handed 310
Helix 31	31	D	66	79	Right-handed alpha
Helix 32	32	D	80	84	Right-handed 310
Helix 33	33	D	95	102	Right-handed alpha
Helix 34	34	D	112	116	Right-handed 310
Helix 35	35	D	124	136	Right-handed alpha
Helix 36	36	D	137	141	Right-handed 310
Helix 37	37	D	167	182	Right-handed alpha
Helix 38	38	D	197	205	Right-handed alpha
Helix 39	39	D	221	239	Right-handed alpha
Helix 40	40	D	264	266	Right-handed 310
Helix 41	41	E	66	79	Right-handed alpha
Helix 42	42	E	80	84	Right-handed 310
Helix 43	43	E	95	102	Right-handed alpha
Helix 44	44	E	112	116	Right-handed 310
Helix 45	45	E	124	136	Right-handed alpha
Helix 46	46	E	137	141	Right-handed 310
Helix 47	47	E	167	182	Right-handed alpha
Helix 48	48	E	197	205	Right-handed alpha
Helix 49	49	E	221	239	Right-handed alpha
Helix 50	50	E	264	266	Right-handed 310
Helix 51	51	F	66	79	Right-handed alpha
Helix 52	52	F	80	84	Right-handed 310
Helix 53	53	F	95	102	Right-handed alpha
Helix 54	54	F	112	116	Right-handed 310
Helix 55	55	F	124	136	Right-handed alpha
Helix 56	56	F	137	141	Right-handed 310
Helix 57	57	F	167	182	Right-handed alpha
Helix 58	58	F	197	205	Right-handed alpha
Helix 59	59	F	221	239	Right-handed alpha
Helix 60	60	F	264	266	Right-handed 310

There are 18 sheets in PDB entry 3CDX. Click on sheet of interest to get list of strands forming it: A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R,

There are 12 strands in A sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	20	29	first strand
Strand 2	A	39	49	anti-parallel
Strand 3	A	86	91	anti-parallel
Strand 4	A	54	59	parallel
Strand 5	A	143	147	parallel
Strand 6	A	208	213	parallel
Strand 7	A	159	163	anti-parallel
Strand 8	A	185	189	parallel
Strand 9	A	258	261	parallel
Strand 10	A	331	338	anti-parallel
Strand 11	A	315	321	anti-parallel
Strand 12	A	268	270	first strand

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There are 4 strands in B sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	154	156	first strand
Strand 2	A	315	321	anti-parallel
Strand 3	A	331	338	anti-parallel
Strand 4	A	286	287	first strand

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There are 4 strands in C sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	A	307	310	first strand
Strand 2	A	292	297	anti-parallel
Strand 3	A	275	279	anti-parallel
Strand 4	A	325	326	anti-parallel

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There are 12 strands in D sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	20	29	first strand
Strand 2	B	39	49	anti-parallel
Strand 3	B	86	91	anti-parallel
Strand 4	B	54	59	parallel
Strand 5	B	143	148	parallel
Strand 6	B	208	213	parallel
Strand 7	B	159	161	anti-parallel
Strand 8	B	185	188	parallel
Strand 9	B	258	261	parallel
Strand 10	B	331	338	anti-parallel
Strand 11	B	315	321	anti-parallel
Strand 12	B	268	270	first strand

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There are 4 strands in E sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	154	156	first strand
Strand 2	B	315	321	anti-parallel
Strand 3	B	331	338	anti-parallel
Strand 4	B	286	287	first strand

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There are 4 strands in F sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	B	307	310	first strand
Strand 2	B	292	297	anti-parallel
Strand 3	B	275	279	anti-parallel
Strand 4	B	325	326	anti-parallel

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There are 12 strands in G sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	20	32	first strand
Strand 2	C	35	49	anti-parallel
Strand 3	C	86	91	anti-parallel
Strand 4	C	54	59	parallel
Strand 5	C	143	147	parallel
Strand 6	C	208	213	parallel
Strand 7	C	159	161	anti-parallel
Strand 8	C	185	188	parallel
Strand 9	C	258	261	parallel
Strand 10	C	331	338	anti-parallel
Strand 11	C	315	321	anti-parallel
Strand 12	C	268	270	first strand

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There are 4 strands in H sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	154	156	first strand
Strand 2	C	315	321	anti-parallel
Strand 3	C	331	338	anti-parallel
Strand 4	C	286	287	first strand

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There are 4 strands in I sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	C	307	310	first strand
Strand 2	C	292	297	anti-parallel
Strand 3	C	275	279	anti-parallel
Strand 4	C	325	326	anti-parallel

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There are 12 strands in J sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	20	32	first strand
Strand 2	D	35	49	anti-parallel
Strand 3	D	86	91	anti-parallel
Strand 4	D	54	58	parallel
Strand 5	D	143	148	parallel
Strand 6	D	208	213	parallel
Strand 7	D	159	161	anti-parallel
Strand 8	D	185	188	parallel
Strand 9	D	258	261	parallel
Strand 10	D	331	338	anti-parallel
Strand 11	D	315	321	anti-parallel
Strand 12	D	268	270	first strand

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There are 4 strands in K sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	154	156	first strand
Strand 2	D	315	321	anti-parallel
Strand 3	D	331	338	anti-parallel
Strand 4	D	286	287	first strand

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There are 4 strands in L sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	D	307	310	first strand
Strand 2	D	292	297	anti-parallel
Strand 3	D	275	279	anti-parallel
Strand 4	D	325	326	anti-parallel

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There are 12 strands in M sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	20	32	first strand
Strand 2	E	35	49	anti-parallel
Strand 3	E	86	91	anti-parallel
Strand 4	E	54	59	parallel
Strand 5	E	143	148	parallel
Strand 6	E	208	213	parallel
Strand 7	E	159	163	anti-parallel
Strand 8	E	185	189	parallel
Strand 9	E	258	261	parallel
Strand 10	E	331	338	anti-parallel
Strand 11	E	315	321	anti-parallel
Strand 12	E	268	270	first strand

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There are 4 strands in N sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	154	156	first strand
Strand 2	E	315	321	anti-parallel
Strand 3	E	331	338	anti-parallel
Strand 4	E	286	287	first strand

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There are 4 strands in O sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	E	307	310	first strand
Strand 2	E	292	297	anti-parallel
Strand 3	E	275	279	anti-parallel
Strand 4	E	325	326	anti-parallel

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There are 12 strands in P sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	20	32	first strand
Strand 2	F	35	49	anti-parallel
Strand 3	F	86	91	anti-parallel
Strand 4	F	54	58	parallel
Strand 5	F	143	146	parallel
Strand 6	F	208	213	parallel
Strand 7	F	159	161	anti-parallel
Strand 8	F	185	188	parallel
Strand 9	F	258	261	parallel
Strand 10	F	331	338	anti-parallel
Strand 11	F	315	321	anti-parallel
Strand 12	F	268	270	first strand

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There are 4 strands in Q sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	154	156	first strand
Strand 2	F	315	321	anti-parallel
Strand 3	F	331	338	anti-parallel
Strand 4	F	286	287	first strand

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There are 4 strands in R sheet. Click on strand of interest for CSU analysis.

Strand number	Chain ID	Initial residue	Terminal residue	Strand sense
Strand 1	F	307	310	first strand
Strand 2	F	292	297	anti-parallel
Strand 3	F	275	279	anti-parallel
Strand 4	F	325	326	anti-parallel

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Please mail questions/suggestions concerning this page to Vladimir.Sobolev@weizmann. ac.il

Analysis of interatomic Contacts of Structural Units in PDB entry: 3CDX

Analysis of interatomic Contacts of Structural Units in PDB entry:
3CDX